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BACKGROUND: ‘Shiranuhi’ mandarin is one of the popular citrus cultivars in Jeju Island, Korea. However, the emergence of scion roots since the past few years has altered its flowering, fruiting, and quality. Girdling of branches is one of the methods of increasing flowering in citrus trees. METHODS AND RESULTS: This experiment was conducted to determine the effect of girdling on the flowering and yields of scion rooted ‘Shiranuhi’ mandarin hybrid. We selected normal trees without scion roots as controls. The trees with scion roots were divided into two groups: trees without girdling and with girdling on main branches. Each group contained five replications and the experiment was conducted in Gosan and Harye of Jeju Island. The scion rooted trees revealed severely decreased flowering and low flowering/leaf ratios; however, the leaf/fruit ratio significantly increased. But, girdling on main branches significantly increased flowering and the flowering/leaf ratio. In the scion rooted trees, yields dropped due to poor flowering; however, girdling of branches efficiently improved the yields of the trees. Fruit quality, fruit size, and fruit weight of scion rooted trees were low in comparison with the control, whereas girdling of the branches improved flowering and the fruit weight to some extent. No significant difference in soluble solid contents was observed. CONCLUSION: Girdling is an effective method to induce flowering of the scion rooted ‘Shiranuhi’ mandarin trees. In addition, yields of scion rooted trees were improved.